Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.6.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16099	0.67
27DAP/17DAP	1.09878	0.881
39DAP/27DAP	1.04372	0.876
41DAP/39DAP	1.24697	0.231
42DAP/41DAP	1.2034	0.841
43DAP/42DAP	0.94517	0.895
47DAP/43DAP	1.28827	0.415
52DAP/47DAP	1.02725	0.964
57DAP/52DAP	1.35433	0.902

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85607	0.149
17DAP/reference	0.92674	0.18
27DAP/reference	0.90704	0.286
39DAP/reference	1.03133	0.871
41DAP/reference	0.99882	0.814
42DAP/reference	0.92496	0.103
43DAP/reference	0.94735	0.519
47DAP/reference	0.95601	0.3
52DAP/reference	1.01646	1
57DAP/reference	1.03367	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17884	0.619
27DAP/17DAP	1.07755	0.751
39DAP/27DAP	0.97202	0.844
41DAP/39DAP	1.08352	1
42DAP/41DAP	0.87667	0.276
43DAP/42DAP	0.76735	0.321
47DAP/43DAP	0.82546	0.088
52DAP/47DAP	1.09787	0.81
57DAP/52DAP	1.0677	0.874
57DAP/7DAP	1.15417	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88845	0.296
17DAP/reference	1.09276	0.477
27DAP/reference	0.99172	0.656
39DAP/reference	1.20118	0.086
41DAP/reference	1.0721	0.539
42DAP/reference	1.07007	0.534
43DAP/reference	1.07688	0.344
47DAP/reference	1.10087	0.149
52DAP/reference	1.15668	0.286
57DAP/reference	1.03411	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05969	0.852
17DAP/reference	0.8222	0.239
27DAP/reference	0.85025	0.15
39DAP/reference	0.94258	0.404
41DAP/reference	0.93379	0.299
42DAP/reference	0.99968	0.655
43DAP/reference	0.95862	0.423
47DAP/reference	0.9814	0.574
52DAP/reference	0.72989	0.066
57DAP/reference	0.89161	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87825	0.23
17DAP/reference	0.8943	0.364
27DAP/reference	0.83945	0.442
39DAP/reference	0.73831	0.271
41DAP/reference	0.93168	0.331
42DAP/reference	1.04705	0.893
43DAP/reference	0.9309	0.384
47DAP/reference	0.92366	0.371
52DAP/reference	0.97697	0.718
57DAP/reference	0.91191	0.339

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13687	0.945
26DAP/20DAP	1.83771	0.598
34DAP/26DAP	1.62859	0.819
51DAP/34DAP	0.62873	0.125
52DAP/51DAP	1.23877	0.146
53DAP/52DAP	0.70749	0.06
55DAP/53DAP	1.20662	1
57DAP/55DAP	1.14355	0.881
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.45639	0.549
68DAP/14DAP	1.96412

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.28327	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92421	0.503
Mature Green Tomato/Ripe Tomato	1.09129	0.774
Immature Eggplant/Mature Eggplant	1.22579	0.417
Ripe Pepper/Ripe Tomato	0.72765	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99216	1
1-1-2/M82	1.54544
12-2/M82	N/A	N/A
12-4/M82	1.21927	1
1-3/M82	0.78676	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.95955	1
3-2/M82	0.89239
4-1-1/M82	0.59274
4-1/M82	1.63186
4-3-2/M82	1.39178
4-3/M82	1.00674
5-3/M82	0.90479	0.642
6-2/M82	0.67808	1
6-3/M82	0.99947	1
7-1/M82	0.99887	1
7-2/M82	0.93026	0.881
9-3-2/M82	1.1768

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.39972	0.277
IL2-6/WTpooled	0.99313	1
IL7-5/WTpooled	1.04034	1
IL7-3/WTpooled	1.14536	1
IL12-4/WTpooled	0.98297	1
IL1-4/WTpooled	0.80328	0.699
WT/WTpooled	1.07862	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	N/A	N/A

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02943	1
DC3000/delta hrp 6h	1.06968	0.95
DC3000/delta hrp 12h	0.88749	1
DC3000/delta hrp 24h	1.07992	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08164	1
Exp 36h	1.74603	0.693
Exp 60h	1.30187	0.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.48488
Var 0h	1.19454	0.325
Var 12h I row2-row1	1.08884	0.473
Var 12h NI row2-row1	0.82783	0.427
Var 36h I row2-row1	0.89001	0.575
Var 36h NI row2-row1	0.7376	0.61
Var 60h I row2-row1	0.54091	1
Var 60h NI row2-row1	0.99695	1
Time course 0hI-0hNI	0.95573	0.866
Time course 12hI-12hNI	0.99445	1
Time course 36hI-36hNI	1.13385	0.799
Time course 60hI-60hNI	1.04667	0.673

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.96985	0.567
transgenic ySAMdc/azygous control (breaker)	1.01774	1
transgenic ySAMdc/azygous control (red)	1.05059	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10841	0.077

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99839	1

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9666	1
Manapal/WT (break)	0.86823	1
Manapal/WT (red)	1.00849	1